Liam McIntyre issues

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Results 4 issues of


                                            Liam McIntyre

Indel alignment

Hi Devs, The IGV screen shot below shows the same deletion in short reads above (BWA-MEM) and ONT reads below (NGMLR). The 22bp deletion is strewn across ~50bp of the...

Soft clipping and read splitting

HI - I have read through your docs/paper and previous issues but have not found a detailed description of how soft clipping and read splitting work. Could you please point...

Indels in multisample VCF

HI Torst, Great to see a multisample VCF now - would be great to have indels in there too, or in a separate multisample VCF. Ta, Liam

enhancement

Cut middle of reads

Hi - I'd like to use clipoverlap on really bad somatic WGS FFPE data. A lot of my reads overlap completely and nearly all have some overlap. Many have insert...